Locus 425

Sequence ID 2L_DroMel_CAF1
Location 1,249,979 – 1,250,128
Length 149
Max. P 0.721324
window689 window690

overview

Window 9

Location 1,249,979 – 1,250,074
Length 95
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 79.43
Mean single sequence MFE -14.37
Consensus MFE -9.97
Energy contribution -10.17
Covariance contribution 0.20
Combinations/Pair 1.08
Mean z-score -1.12
Structure conservation index 0.69
SVM decision value -0.01
SVM RNA-class probability 0.527597
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1249979 95 + 22407834
GCCAAAAGA---CUUU--GUCCGGAUGCCACGU--CAAGCUAAAGAAAACAAAUACAACGGACGCUUAUUUACAUAUUCCCAAACGUAAAUACGCGCCAUUU
.........---((((--(.(..((((...)))--)..).)))))..............((.(((.(((((((............))))))).))))).... ( -16.80)
>DroVir_CAF1 28114 83 + 1
---AAA----------------AGACGCAACGGCACAAGCUAAAGGAAAUAAAUACAACGGACUCUUAUUUACAUAUUCCCAAACGUAAAUACGCGCCAUUU
---...----------------.(.(((...(((....))).........................(((((((............))))))).))).).... (  -9.30)
>DroPse_CAF1 14752 100 + 1
CCCAAGACUCCCCUUUUCGCUGGGACGCCACGU--AAAGCUAAAGAAAAUAAAUACAACGGACGCUUAUUUACAUAUUCCCAAACGUAAAUACGCGCCAUUU
............((((..(((...(((...)))--..))).))))..............((.(((.(((((((............))))))).))))).... ( -17.80)
>DroWil_CAF1 13867 81 + 1
-------------------AGACGACUCCACAU--CAACCUAAAGAAAAUAAAUACAACGGACGCUUAUUUGCAUAUUCCCAAACGUAAAUACGCACCAUUU
-------------------..............--........................((..((.(((((((............))))))).)).)).... (  -7.90)
>DroYak_CAF1 10381 95 + 1
A---GCACCCCCCUUU--GUCCGGAUGCCACGU--CAAGCUAAAGAAAACAAAUACAACGGACGCUUAUUUACAUAUUCCCAAACGUAAAUACGCGCCAUUU
.---........((((--(.(..((((...)))--)..).)))))..............((.(((.(((((((............))))))).))))).... ( -16.60)
>DroPer_CAF1 14607 100 + 1
CCCAAGACUCCCCUUUUCGCUGGGACGCCACGU--AAAGCUAAAGAAAAUAAAUACAACGGACGCUUAUUUACAUAUUCCCAAACGUAAAUACGCGCCAUUU
............((((..(((...(((...)))--..))).))))..............((.(((.(((((((............))))))).))))).... ( -17.80)
>consensus
___AAAAC____CUUU__GCCCGGACGCCACGU__CAAGCUAAAGAAAAUAAAUACAACGGACGCUUAUUUACAUAUUCCCAAACGUAAAUACGCGCCAUUU
...........................................................((.(((.(((((((............))))))).))))).... ( -9.97 = -10.17 +   0.20)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 0

Location 1,250,034 – 1,250,128
Length 94
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 83.13
Mean single sequence MFE -13.74
Consensus MFE -10.60
Energy contribution -10.60
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.77
SVM decision value 0.40
SVM RNA-class probability 0.721324
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1250034 94 - 22407834
AAUACGCGUUAAA-AAAGGCAAAAA----AAAAAAAGUAUGAAAAG---GUGGAGCAAAUAAAAAUGGCGCGUAUUUACGUUUGGGAAUAUGUAAAUAAGCG
..(((((((((..-....((.....----.................---.....)).........)))))))))(((((((........)))))))...... ( -13.09)
>DroSec_CAF1 9836 92 - 1
AAUACGCGUUAAA-AAAAGCAAGAA------AAAAUGUAUGAAAAG---GUGGAGCAAAUAAAAAUGGCGCGUAUUUACGUUUGGGAAUAUGUAAAUAAGCG
..(((((((((..-....(((....------....)))........---(.....).........)))))))))(((((((........)))))))...... ( -13.90)
>DroSim_CAF1 10316 93 - 1
AAUACGCGUUAAAAAAAAGCAAGAA------AAAAUGUAUGAAAAG---GUGGAGCAAAUAAAAAUGGCGCGUAUUUACGUUUGGGAAUAUGUAAAUAAGCG
..(((((((((.......(((....------....)))........---(.....).........)))))))))(((((((........)))))))...... ( -13.90)
>DroEre_CAF1 22957 85 - 1
------CGUUAAA-AACUGGAAGGA-------AAAAGUACAAAAAG---GUGGAGCAAAUAAAAAUGGCGCGUAUUUACGUUUGGGAAUAUGUAAAUAAGCG
------.(((...-.(((.....(.-------.......).....)---))..)))............(((.(((((((((........))))))))).))) ( -12.30)
>DroAna_CAF1 33184 100 - 1
AAUAUACAUUGAA-AC-AAAAAGAAACGAAGGACAAAAAUAAAAAGCUCGUGCUGCAAAUAAAAAUGGCGCGUAUUUACGUUUGGGAAUAUGUAAAUAAGCG
.............-..-.........(....).............(((((((((............))))))(((((((((........)))))))))))). ( -15.50)
>consensus
AAUACGCGUUAAA_AAAAGCAAGAA______AAAAAGUAUGAAAAG___GUGGAGCAAAUAAAAAUGGCGCGUAUUUACGUUUGGGAAUAUGUAAAUAAGCG
....................................................................(((.(((((((((........))))))))).))) (-10.60 = -10.60 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:54 2006